Started by upstream project "BIOFORMATS-test-repo" build number 70
originally caused by:
Started by upstream project "Trigger" build number 78
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins1309398926103480297.sh
+ '[' avi = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_10555_merge_ci -v /uod/idr/repos/curated/avi:/data -v /uod/idr-scratch/merge-ci/curated/avi:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12
Buildfile: /bio-formats-build/bioformats/components/test-suite/build.xml
[echo] isSnapshot = true
init-title:
[echo] ----------=========== bio-formats-testing-framework ===========----------
init-timestamp:
init:
copy-resources:
compile:
[resolver:resolve] Resolving artifacts
compile-tests:
[resolver:resolve] Resolving artifacts
[javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test
[javac] warning: [options] bootstrap class path not set in conjunction with -source 8
[javac] 1 warning
test-automated:
[testng] WARNING: An illegal reflective access operation has occurred
[testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket
[testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener
[testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
[testng] WARNING: All illegal access operations will be denied in a future release
[testng] File leak detector installed
[testng] 02:01:21,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:01:21,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:01:21,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:01:21,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:01:21,760 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:01:21,760 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:01:21,760 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:01:21,761 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:01:21,761 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@41a0aa7d - End of configuration.
[testng] 02:01:21,762 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6574a52c - Registering current configuration as safe fallback point
[testng] 02:01:21,762 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6c1a5b54 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 434 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-21 02:01:21,774] [main] java.version = 11.0.16
[testng] 02:01:21,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:01:21,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:01:21,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-21_02-01-21.log]
[testng] 02:01:21,887 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-05-21 02:01:21,893] [main] testng.directory = /data
[testng] [2024-05-21 02:01:21,893] [main] testng.configDirectory = /config
[testng] [2024-05-21 02:01:21,986] [main] testng.multiplier = 1.0
[testng] [2024-05-21 02:01:21,988] [main] testng.in-memory = false
[testng] [2024-05-21 02:01:21,988] [main] testng.allow-missing = false
[testng] [2024-05-21 02:01:21,988] [main] user.language = en
[testng] [2024-05-21 02:01:21,988] [main] user.country = ${user.country}
[testng] [2024-05-21 02:01:21,988] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-21 02:01:23,320] [main] ----------------------------------------
[testng] [2024-05-21 02:01:23,320] [main] Total files: 40
[testng] [2024-05-21 02:01:23,320] [main] Scan time: 1.332 s (33 ms/file)
[testng] [2024-05-21 02:01:23,320] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 38 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-21 02:05:40,035] [pool-1-thread-1] Initializing /data/kurt/63x_6um.avi:
[testng] 02:05:40,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:05:40,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,038 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-21_02-05-40.log]
[testng] 02:05:40,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@555409ff - End of configuration.
[testng] [2024-05-21 02:05:40,152] [pool-1-thread-12] Initializing /data/ascb/TIRF.avi:
[testng] 02:05:40,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:05:40,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,154 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-21_02-05-40.log]
[testng] 02:05:40,154 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53a97531 - End of configuration.
[testng] [2024-05-21 02:05:40,413] [pool-1-thread-11] Initializing /data/curtis/mri-stack-ij-new.avi:
[testng] 02:05:40,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:05:40,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-21_02-05-40.log]
[testng] 02:05:40,414 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14b7176d - End of configuration.
[testng] [2024-05-21 02:05:40,432] [pool-1-thread-10] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi:
[testng] 02:05:40,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:05:40,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,434 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-21_02-05-40.log]
[testng] 02:05:40,434 |-INFO in ch.qos.logback.core.sift.SiftProcessor@313594dc - End of configuration.
[testng] [2024-05-21 02:05:40,453] [pool-1-thread-9] Initializing /data/qa-7450/MVI_3610.AVI:
[testng] 02:05:40,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:05:40,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-21_02-05-40.log]
[testng] 02:05:40,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27e15a66 - End of configuration.
[testng] [2024-05-21 02:05:40,503] [pool-1-thread-8] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi:
[testng] 02:05:40,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:05:40,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,504 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-21_02-05-40.log]
[testng] 02:05:40,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f82270 - End of configuration.
[testng] [2024-05-21 02:05:40,561] [pool-1-thread-7] Initializing /data/chip_avi/Level002-DB-090.avi:
[testng] 02:05:40,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:05:40,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-21_02-05-40.log]
[testng] 02:05:40,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d33b420 - End of configuration.
[testng] [2024-05-21 02:05:40,575] [pool-1-thread-6] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi:
[testng] 02:05:40,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:05:40,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:40,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-21_02-05-40.log]
[testng] 02:05:40,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21b5ada4 - End of configuration.
[testng] [2024-05-21 02:05:58,201] [pool-1-thread-5] Initializing /data/qa-5019/nemo-2_1_.avi:
[testng] 02:05:58,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:05:58,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:58,202 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-21_02-05-58.log]
[testng] 02:05:58,203 |-INFO in ch.qos.logback.core.sift.SiftProcessor@639aa4f9 - End of configuration.
[testng] [2024-05-21 02:05:58,240] [pool-1-thread-4] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi:
[testng] 02:05:58,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:05:58,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:58,241 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-21_02-05-58.log]
[testng] 02:05:58,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@404be8a7 - End of configuration.
[testng] [2024-05-21 02:05:58,277] [pool-1-thread-3] Initializing /data/chris/APZ04_009.avi:
[testng] 02:05:58,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:05:58,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:58,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-21_02-05-58.log]
[testng] 02:05:58,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53ba30de - End of configuration.
[testng] [2024-05-21 02:06:06,409] [pool-1-thread-2] Initializing /data/simon/24_bit_problem.avi:
[testng] 02:06:06,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:06:06,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:06:06,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-21_02-06-06.log]
[testng] 02:06:06,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54d34eec - End of configuration.
[testng] [2024-05-21 02:06:09,099] [pool-1-thread-7] Initializing /data/roger/op9middle40x.lsm movie.avi:
[testng] [2024-05-21 02:06:09,121] [pool-1-thread-11] Initializing /data/roger/op9middle40x.lsm movie 3.avi:
[testng] [2024-05-21 02:06:09,146] [pool-1-thread-10] Initializing /data/kurt/40x_6um_2.avi:
[testng] [2024-05-21 02:06:09,202] [pool-1-thread-4] Initializing /data/chip_avi/Level001-ES-083.avi:
[testng] [2024-05-21 02:06:09,221] [pool-1-thread-5] Initializing /data/roger/spheroid1-crop.lsm movie.avi:
[testng] [2024-05-21 02:06:09,247] [pool-1-thread-9] Initializing /data/william/worm.avi:
[testng] [2024-05-21 02:06:09,257] [pool-1-thread-2] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi:
[testng] [2024-05-21 02:06:09,343] [pool-1-thread-12] Initializing /data/prairie/cornea dc and macs.AVI:
[testng] [2024-05-21 02:06:10,061] [pool-1-thread-8] Initializing /data/curtis/mri-stack-ij-old.avi:
[testng] [2024-05-21 02:06:10,371] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie 4.avi:
[testng] [2024-05-21 02:06:10,461] [pool-1-thread-4] Initializing /data/qa-11011/M-flow10001.avi:
[testng] [2024-05-21 02:06:11,249] [pool-1-thread-1] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi:
[testng] [2024-05-21 02:06:11,269] [pool-1-thread-8] Initializing /data/kurt/40x_6um.avi:
[testng] [2024-05-21 02:06:11,652] [pool-1-thread-7] Initializing /data/jae/20xD_5minfor14h.avi:
[testng] [2024-05-21 02:06:12,529] [pool-1-thread-5] Initializing /data/roger/spheroid1.lsm movie.avi:
[testng] [2024-05-21 02:06:12,679] [pool-1-thread-2] Initializing /data/roger/op9middle40x.lsm movie 2.avi:
[testng] [2024-05-21 02:06:12,707] [pool-1-thread-1] Initializing /data/sample-avis/extra-chunk/HyperStack.avi:
[testng] [2024-05-21 02:06:12,733] [pool-1-thread-11] Initializing /data/qa-5019/nemo-2_10_20.avi:
[testng] [2024-05-21 02:06:13,026] [pool-1-thread-9] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi:
[testng] [2024-05-21 02:06:13,148] [pool-1-thread-1] Initializing /data/curtis/mri-stack-bf.avi:
[testng] [2024-05-21 02:06:13,303] [pool-1-thread-10] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi:
[testng] [2024-05-21 02:06:14,500] [pool-1-thread-12] Initializing /data/chip_avi/Level003-DB-089.avi:
[testng] [2024-05-21 02:06:14,702] [pool-1-thread-2] Initializing /data/chip_avi/Level004-WA-116.avi:
[testng] [2024-05-21 02:06:14,805] [pool-1-thread-1] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi:
[testng] [2024-05-21 02:06:14,867] [pool-1-thread-11] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi:
[testng] [2024-05-21 02:06:14,874] [pool-1-thread-8] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 2014, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 5 minutes 12 seconds
Finished: SUCCESS